genome.fa.s7844.2.7.7.80.10.50.1000.6.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01007844.1 Hibiscus syriacus cultivar Beakdansim tig00110198_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2094103

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 732 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1734422--1734563	72	2.0	73	88	6	218	44	4	9	41	1.58
1737159--1737188	15	2.0	15	93	0	51	53	3	6	36	1.44
1738426--1738456	2	15.5	2	100	0	62	51	0	0	48	1.00
1749796--1749836	21	2.0	21	85	9	57	7	31	14	46	1.72
1759044--1759084	2	20.5	2	100	0	82	51	0	0	48	1.00
1770524--1770571	2	24.0	2	100	0	96	50	0	0	50	1.00
1777433--1777487	27	2.0	27	96	0	101	23	21	21	32	1.98
1784091--1784132	2	21.5	2	82	4	50	50	7	0	42	1.30
1784530--1784625	30	3.2	30	86	1	131	33	25	18	22	1.97
1785496--1785672	64	2.8	64	84	5	214	25	19	21	33	1.97
1785496--1785704	64	3.3	64	82	5	199	27	18	20	33	1.96
1789298--1789333	2	18.0	2	100	0	72	50	0	0	50	1.00
1789744--1789839	30	3.2	30	91	1	131	32	25	20	21	1.98
1790251--1790295	15	3.0	15	83	0	54	37	20	0	42	1.52
1790708--1790849	64	2.2	64	82	6	171	25	19	21	33	1.97
1790791--1790894	45	2.3	45	85	6	131	27	17	20	34	1.95
1804912--1804946	2	18.0	2	94	5	63	51	0	0	48	1.00
1808173--1808235	23	2.7	23	90	0	90	38	19	4	38	1.73
1808643--1808701	23	2.6	23	94	0	100	38	20	5	35	1.75
1809120--1809182	23	2.7	23	92	0	99	38	20	4	36	1.74
1807779--1810827	472	6.5	478	95	3	5436	40	11	7	40	1.69
1809592--1809652	23	2.8	22	85	7	81	37	22	4	34	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1807779--1810827	946	3.2	956	95	3	5445	40	11	7	40	1.69
1810066--1810128	23	2.7	23	95	0	108	36	20	6	36	1.78
1810536--1810591	23	2.4	23	90	0	94	37	21	5	35	1.76
1810627--1811331	223	3.1	228	93	4	1205	39	8	7	44	1.63
1816968--1817009	22	1.9	22	90	0	66	54	2	0	42	1.13
1817142--1817166	7	3.6	7	100	0	50	28	44	12	16	1.83
1817492--1817531	21	1.9	21	89	0	62	57	27	0	15	1.38
1817490--1817560	36	2.0	36	85	0	97	52	25	0	22	1.48
1819030--1819069	21	1.9	21	84	0	53	50	5	10	35	1.58
1819389--1819433	7	6.4	7	87	7	65	28	2	0	68	1.01
1824966--1825702	128	5.7	128	94	0	1267	21	24	21	33	1.97
1826094--1826177	34	2.5	33	84	5	105	36	3	3	55	1.34
1826122--1826211	46	1.9	47	90	2	146	36	2	3	57	1.27
1826736--1826805	21	3.3	20	90	5	95	18	27	35	18	1.94
1826812--1826856	21	2.1	21	87	0	63	24	13	37	24	1.91
1828825--1828882	26	2.2	26	100	0	116	29	3	31	36	1.74
1831393--1831475	27	2.9	29	78	7	89	37	1	0	61	1.04
1831415--1831452	17	2.2	18	86	13	53	36	0	0	63	0.95
1833442--1833481	21	1.9	21	84	0	53	27	10	12	50	1.72
1835262--1835297	18	2.1	18	94	5	65	16	0	11	72	1.12
1845413--1845494	29	2.8	29	94	1	137	32	14	9	42	1.79
1850181--1850262	29	2.8	29	94	1	137	32	14	9	42	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1851807--1851860	27	1.9	27	85	7	72	20	5	5	68	1.30
1858822--1858963	60	2.4	60	80	4	180	31	22	4	41	1.73
1858822--1859009	60	3.1	60	73	8	177	30	23	5	40	1.77
1859133--1859325	64	3.2	58	74	18	160	41	4	20	33	1.73
1862721--1862758	11	3.6	10	86	13	58	0	18	39	42	1.50
1862792--1862845	3	17.7	3	80	3	63	64	1	1	31	1.14
1863028--1863415	128	3.0	128	97	0	731	25	18	31	24	1.98
1863007--1863423	40	9.7	45	72	16	280	25	18	30	24	1.98
1863541--1863615	36	2.1	36	82	9	91	45	12	17	25	1.82
1863503--1863622	63	1.9	63	85	11	165	41	11	17	29	1.85
1863690--1863871	28	6.4	27	86	6	150	46	14	10	28	1.77
1863705--1863868	29	5.8	28	86	6	206	45	15	10	28	1.80
1863705--1863868	85	1.9	85	86	7	235	45	15	10	28	1.80
1863705--1863868	57	2.9	56	82	5	206	45	15	10	28	1.80
1864110--1864212	36	3.0	35	80	7	113	33	11	21	33	1.89
1864181--1864412	105	2.3	100	82	6	259	37	12	18	31	1.88
1864877--1864912	4	9.5	4	88	11	58	25	0	25	50	1.50
1872726--1872763	11	3.6	10	86	13	58	0	18	39	42	1.50
1872797--1872853	3	18.7	3	81	3	69	64	1	1	31	1.13
1873480--1873602	59	2.1	58	80	6	131	32	17	17	31	1.94
1878362--1878433	29	2.4	30	86	2	92	29	18	6	45	1.75
1882463--1882512	17	3.1	17	68	26	54	52	22	6	20	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1882813--1882856	20	2.1	20	87	8	61	34	0	29	36	1.58
1887594--1887628	15	2.4	14	90	9	52	48	0	0	51	1.00
1893061--1893107	4	11.8	4	81	0	58	25	14	25	34	1.94
1893061--1893110	8	6.2	8	97	0	91	26	14	24	36	1.93
1895686--1895711	13	2.0	13	100	0	52	38	23	15	23	1.92
1906442--1906803	123	2.9	123	79	3	309	30	16	23	29	1.96
1922318--1922370	21	2.5	21	72	6	54	49	5	3	41	1.44
1934390--1934530	54	2.6	54	85	4	169	17	31	21	29	1.97
1934540--1934655	48	2.4	48	88	0	160	21	25	23	29	1.99
1942582--1942618	19	2.0	19	94	5	67	29	0	0	70	0.88
1947842--1947997	80	2.0	80	100	0	312	26	23	17	32	1.97
1950090--1950124	11	3.2	11	91	0	61	28	20	0	51	1.47
1950921--1950960	21	1.9	21	84	0	53	37	5	17	40	1.72
1953956--1954115	80	2.0	80	97	2	304	31	25	23	20	1.98
1957342--1957420	25	3.3	25	70	13	85	49	7	2	40	1.45
1959936--1959976	17	2.4	17	87	4	55	36	7	12	43	1.70
1960443--1960535	45	2.1	45	100	0	186	26	6	18	48	1.72
1967239--1967281	15	2.8	15	92	3	68	58	0	0	41	0.98
1967500--1967539	14	2.8	14	84	3	53	45	0	0	55	0.99
1969240--1969273	15	2.3	15	89	0	50	29	32	20	17	1.96
1969837--1969924	45	2.0	45	84	4	115	28	13	17	40	1.87
1976126--1976159	15	2.3	15	94	0	59	38	32	14	14	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1976686--1976842	64	2.5	64	76	8	158	28	18	17	36	1.93
1980992--1981038	24	2.0	24	83	8	60	4	25	23	46	1.70
1982934--1982975	13	3.2	13	80	16	50	69	0	2	28	1.01
1985346--1985377	12	2.7	12	90	0	55	50	6	3	40	1.43
2001535--2001573	2	19.0	2	84	5	51	48	0	2	48	1.15
2009404--2009438	17	2.1	17	100	0	70	40	5	31	22	1.78
2010019--2010073	26	2.2	25	83	6	67	20	12	27	40	1.88
2010029--2010085	26	2.1	28	87	6	82	17	12	33	36	1.87
2019439--2019502	31	2.1	31	87	0	92	14	20	15	50	1.78
2019698--2019744	20	2.3	21	79	20	55	34	0	23	42	1.54
2021723--2021773	21	2.4	21	80	6	68	25	9	5	58	1.52
2023977--2024030	27	2.0	26	85	3	72	40	5	16	37	1.72
2025038--2025125	30	2.9	30	94	0	149	42	25	28	4	1.74
2026309--2026400	3	30.7	3	100	0	184	33	0	0	66	0.92
2038139--2038293	64	2.4	63	81	5	170	25	18	25	30	1.98
2041847--2041927	29	2.7	31	74	14	80	49	1	8	40	1.41
2044424--2044457	2	17.0	2	100	0	68	50	0	0	50	1.00
2048917--2048989	31	2.3	31	80	2	83	57	0	10	31	1.33
2051398--2051435	4	9.5	4	100	0	76	73	0	26	0	0.83
2062269--2062302	16	2.1	16	88	0	50	20	32	5	41	1.76
2066168--2066217	21	2.4	21	83	3	57	28	10	36	26	1.88
2070743--2070878	60	2.3	60	83	6	161	33	16	15	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2072823--2072862	2	20.0	2	100	0	80	50	0	0	50	1.00
2076331--2076380	2	26.0	2	76	8	50	52	0	0	48	1.00
2076331--2076415	43	2.0	42	88	6	127	52	0	0	47	1.00
2076480--2076553	36	2.1	36	92	5	123	17	40	12	29	1.86
2088282--2088333	6	8.7	6	91	0	86	19	15	13	51	1.75
2088618--2088918	20	14.9	20	77	14	205	39	23	20	16	1.92
2088618--2088947	82	4.1	81	76	14	301	40	23	20	15	1.90
2088620--2088930	40	7.7	40	80	11	264	39	23	20	16	1.92
2088620--2088930	60	5.1	60	76	13	273	39	23	20	16	1.92
2088699--2088930	20	11.4	20	83	9	222	37	24	21	16	1.93

Tables:   1   2   3   4   5   6   7